Pathway Analysis using Random Forests specifications

Information


Unique identifier OMICS_24893
Name Pathway Analysis using Random Forests
Alternative name pathwayRF
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainers


  • person_outline Hongyu Zhao <>
  • person_outline Herbert Pang <>

Publication for Pathway Analysis using Random Forests

Pathway Analysis using Random Forests in publications

 (2)
PMCID: 4263464
PMID: 25574128
DOI: 10.4137/CIN.S13973

[…] status has also been used to guide breast cancer therapy, breast cancer survival rate, and estimate breast cancer risk.,,, r was used to perform stratified pathway analysis. the r code is based on pathway analysis using random forests and it is available here: http://people.duke.edu/~hp44/r_code.htm. for pathway visualizations, cytoscape was used., in this section, we show the results […]

PMCID: 3037853
PMID: 21261946
DOI: 10.1186/1471-2105-12-29

[…] all three methods display similar performance, except sam-gs exhibits slightly higher power with regard to highly significant gene sets., other methods that fall into the category of fcs include pathwayrf [] and the learner of functional enrichment (lefe) [], which both use machine learning approaches to analyse gene expression data in terms of gene sets. both of these methods model […]


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Pathway Analysis using Random Forests institution(s)
Division of Biostatistics, Department of Epidemiology and Public Health, Yale University School of Medicine, New Haven, CT, USA; W. M. Keck Biotechnology Resource Laboratory, Yale University School of Medicine, New Haven, CT, USA; Boyer Center for Molecular Medicine, Yale University School of Medicine, New Haven, CT, USA; Department of Genetics, Yale University School of Medicine, New Haven, CT, USA; Pfizer Groton Laboratories, Safety Sciences, Groton, CT, USA
Pathway Analysis using Random Forests funding source(s)
Supported by a grant from Pfizer.

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